Improved Hidden Markov Models for Molecular Motors, Part 1: Basic Theory

Mullner, F. E.; Syed, S.; Selvin, P. R.; Sigworth, F. J.

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Improved Hidden Markov Models for Molecular Motors, Part 1: Basic Theory

Mullner, F. E., Syed, S., Selvin, P. R., & Sigworth, F. J. (2010). Improved Hidden Markov Models for Molecular Motors, Part 1: Basic Theory. Biophysical Journal, 99(11), 3684-3695.

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Item Permalink: https://hdl.handle.net/11858/00-001M-0000-0012-1F3B-E Version Permalink: https://hdl.handle.net/11858/00-001M-0000-0012-1F3C-C

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Mullner, F. E.¹, Author
Syed, S.², Author
Selvin, P. R.², Author
Sigworth, F. J.², Author

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1Department: Cellular and Systems Neurobiology / Bonhoeffer, MPI of Neurobiology, Max Planck Society, ou_1113545
2[Mullner, Fiona E.; Sigworth, Fred J.] Yale Univ, Dept Cellular & Mol Physiol, New Haven, CT 06520 USA.; [Syed, Sheyum; Selvin, Paul R.] Univ Illinois, Dept Phys, Urbana, IL 61801 USA.; [Syed, Sheyum; Selvin, Paul R.] Univ Illinois, Ctr Phys Living Cells, Urbana, IL 61801 USA.; [Selvin, Paul R.] Univ Illinois, Ctr Biophys & Computat Biol, Urbana, IL 61801 USA., ou_persistent22

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Abstract: Hidden Markov models (HMMs) provide an excellent analysis of recordings with very poor signal/noise ratio made from systems such as ion channels which switch among a few states This method has also recently been used for modeling the kinetic rate constants of molecular motors where the observable variable the position steadily accumulates as a result of the motor s reaction cycle We present a new HMM implementation for obtaining the chemical kinetic model of a molecular motor's reaction cycle called the variable stepsize HMM in which the quantized position variable is represented by a large number of states of the Markov model Unlike previous methods the model allows for arbitrary distributions of step sizes and allows these distributions to be estimated The result is a robust algorithm that requires little or no user input for characterizing the stepping kinetics of molecular motors as recorded by optical techniques

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Language(s): eng - English

Dates: Date issued: 2010-12-01

Publication Status: Issued

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Rev. Type: Peer

Identifiers: eDoc: 522623
ISI: 000285033800021

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Title: Biophysical Journal

Alternative Title : Biophys. J.

Source Genre: Journal

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Publ. Info: CAMBRIDGE : CELL PRESS

Pages: - Volume / Issue: 99 (11) Sequence Number: - Start / End Page: 3684 - 3695 Identifier: ISSN: 0006-3495